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lncRNA: ENSG00000279789

Summary for CTD-2574D22.3

Gene summary

Gene information	Ensembl ID	ENSG00000279789
	Gene symbol	CTD-2574D22.3
	Gene name
	HGNC
	Entrez ID
	Gene type	TEC
	Synonyms
	UniProtAcc

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Structure and expression level for CTD-2574D22.3

Differentially expressed gene analysis between cancer and normal samples.

Ensembl ID	Base mean	log2FC(AD/control)	lfcSE	Stat	P-value	Adjc.p-value	DEG direction	Cancer type
ENSG00000279789	9.139731e+01	1.784184e+00	3.365092e-01	5.302036e+00	1.150000e-07	9.000000e-07	UP	CHOL
ENSG00000279789	1.556860e+02	1.063372e+00	1.734011e-01	6.132444e+00	8.650000e-10	1.030000e-08	UP	STAD
ENSG00000279789	7.615625e+01	1.361640e+00	2.639145e-01	5.159399e+00	2.480000e-07	3.630000e-06	UP	READ

Correlation between lncRNAs and cancer stages.

LncRNA Ensembl ID	Correlation	P-value	Cancer Type	Adjc.p-value
ENSG00000279789	4.883066e-01	6.664717e-04	CHOL	1.245561e-03

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lncRNA-Protein interaction for CTD-2574D22.3

lncRNA-epigenetic factor interaction (#cancer types with positive correlation >= 5).

LncRNA Ensembl ID

LncRNA ENST ID

LncRNA Name

Protein Ensembl ID

Protein Name

CatRAPID Score

Lncpro Score

UniPortID

Gene Subtype

Public source

lncRNA-transcript factor interaction (#cancer types with positive correlation >= 5).

LncRNA Ensembl ID

LncRNA ENST ID

LncRNA Name

Protein Ensembl ID

Protein Name

CatRAPID Score

Lncpro Score

UniPortID

Gene Subtype

Public source

lncRNA-RNA binding protein interaction (#cancer types with positive correlation >= 5).

LncRNA Ensembl ID

LncRNA ENST ID

LncRNA Name

Protein Ensembl ID

Protein Name

CatRAPID Score

Lncpro Score

UniPortID

Gene Subtype

Public source

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lncRNA-DNA interaction for CTD-2574D22.3

lncRNA targets the enhancer region and positively regulates the gene expression.

Only predicted by TDF

RPAP2,PMM2,ERI2,NUP43,SPATA13,MZF1,TTC31,MAPK8IP3,SUGP2,N4BP2L2,DCLRE1C,DMTF1,L3HYPDH,UNKL,PIGG,LMBR1L,USP36,KMT2B,ZFP14,CENATAC,NPEPL1,SAFB2,KCTD13,MSANTD2,TUBGCP6,CCDC14,CLK4,TTC14,KNTC1,TAZ,SPG7,PPIP5K2,SCYL3,CLCN6,ECHDC2,OGT,CLK2,ARID4B,POLG2,DHX34,CHKB,RIC8B,MGRN1,BBIP1,THOC2,CLK1,ATXN7,RABL2A,RPAIN,OFD1,FBXO38,SLC25A29,IQGAP3,IFT172,XPNPEP3,ANO8,RSRC2,NAA25,SETD5,ZFP62,GON4L,BRAF,RALGAPA2,AGER,AGO3,ORC2,PHC3,CUL9,CDK11A,PASK,DHX35,ABHD16A,CCDC191,DCUN1D2,NXF1,NR2C2,PAN2,GIGYF1,FAM193B,THEM4,COG7,ATG2B,ZFC3H1,MBTD1,DMAC2L,ATXN2L,DNASE1,GAS8,VCPKMT,CEP192,ARHGEF11,EIF4A1,VPS13A,POLM,PALB2,ERCC5,SWT1,ATM,FLVCR1,ILF3,TTC17,CDK13,LENG8,SH2B1,LCORL,C1orf159,UBE2G2,ARIH2,PPWD1,SLC30A7,ATG12,AHI1,INO80D,NHLRC3,CRLF3,DDX55,KRIT1,CAPN10,AP1G2,FAM111A,THOC1,ANKMY1,WDR59,PHF12,RALGPS2,ZMYM5,IFT140,NBEAL2,SNRNP48,RC3H1,ZNF44,SMG1,PKD1,METAP1D,BCLAF3,PUS7L,IFT80,CEP83,EP400,UBN2,LRIG2,ABHD18,NEMF,NRBP2,SLX4,SMYD4,IKBKB,NBPF11,ACIN1,ZNF41,ZC3H8,ARHGAP17,MAU2,ENOSF1,PAXBP1,SLC38A9,COA1,FNBP4,KMT2D,BOD1L1,RSRP1,NEK8,CHD2,USP40,MED23,NVL,ATG14,CLEC2D,PWWP2A,NBPF15,LTB4R,ANKLE2,ZNF720,HEMK1,PCSK4,GSAP,DDX11,FBXL8,GK5,NDUFAF7,RBM6,EHMT1,TRMT13,ZNF862,RNF115,ATP6V0A2,CCDC142,ELP1,PAXIP1,NOM1,EPM2AIP1,CHD1,WDR27,HECTD4,EME2,KHDC4,PLXNB1,TPR,HPS4,PNISR,TPCN1,SFPQ,TMEM63A,CARD8,ATAD2B,ATAT1,PLCG1,RALGAPA1,ANGEL2,KDM3B,MYSM1,AKAP8,CEP250,VPS13B,SPIN3,SLX4IP,RDH13,KLHDC4,GATAD1,CCNL2,RNPC3,ANKRD10,TENT4A,LRCH3,CHTOP,DOP1A,KANSL3,KMT2C,SCAF4,PHF8,TYK2,MPHOSPH9,CCNT2,OSBPL7,KAT2A,ZNF91,AGO2,RBM26,NAPEPLD,ZBTB3,RBM25,MLH3,SETD6,KANSL1L,POLI,PRPF39,KIAA0753,SRRM2,BTN2A1,EPC1,PABIR2,RBM41,HSF4,PROSER3,ARGLU1,ANKS3,YJEFN3,CCNL1,VMAC,NCOR1,CELF1,TMEM161B,RBM45,R3HDM2,FAM160A2,TIA1,HOOK2,ZNF83,MOSMO,HCN3,KANSL1,ZNF8,RUSF1,NEIL1,SZT2,POLE,GRIPAP1,ELF2,CRAMP1,LUC7L,URGCP,PNN,LUC7L2,BRD8,CCAR1,DGKD,TRA2A,MAPKAPK5,REV1,PCBD2,NR2C1,APBB3,CYTH2,RUFY2,TEPSIN,RBM33,NOL8,WDR37,LRCH4,SRRT,AGAP6,GGA3,RBM19,GABPB2,ATXN7L1,TRIM66,RBM39,GPATCH8,PGS1,CLEC16A,ZCCHC8,ERICH1,NRF1,ZXDC,KAT8,NSRP1,INTS3,PIGL,ZC3H7A,CSAD,LRRC37A3,KIAA0895L,ATAD3B,RBM28,DCAF8,PHYKPL,SF3B1,NHLRC2,OGA,RECQL5,PAN3,PHKG2,KMT2E,DCAF16,CENPT,OSGEPL1,S100PBP,MTG1,FAM76B,POGZ,ANAPC7,BRWD3,TSC2,EXOG,PCNT,C21orf58,TAF1C,MAP3K12,MYO19,RHBDF1,CAPN15,MRNIP,THAP6,ELMOD3,DDX17,SENP7,RSBN1L,MTRF1,RAD52,MARF1,CEP290,WSB1,STK19,USP21,ELK4,KLC1,GPS2,TRIM52,NCBP3,CLASRP,CCDC93,TTC13,CWC25,STK36,MTX3,GOLGA8B,ALPK1,ACP6,STRADA,ZNF18,DIDO1,GOLGA8A,PAM16,SETD4,SPIRE2,AARSD1,TYW5,RBM5,NKTR,CEP162,FARP2,C19orf71,SRCAP,TTLL3,ZNF84,BAZ2B,MTMR11,LRP5L,KATNIP,ASXL1,TSC1,FBRS,DENND4B,TEP1,FBXO42,MAN2C1,PRPF4B,CCDC57

Exist in public source

lncRNA targets the promoter region and positively regulates the gene expression.

lncRNA targets the promoter region and negatively regulates the gene expression.

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lncRNA-RNA interaction for CTD-2574D22.3

lncRNA targets the 3'UTR region and negatively regulates the mRNA.

lncRNA targets the skipped exon region.

-lncRNA and exonskipping events are positively correlated.

LncRNA Ensembl ID

LncRNA ENST ID

Exon ID

Skipped Exon

ndG

Gene name with skipped exon

TransID with skipped exon

ORF mutation

-lncRNA and exonskipping events are negatively correlated.

lncRNA and exonskipping events negative correlated

LncRNA Ensembl ID	LncRNA ENST ID	Exon ID	Skipped Exon	dG	ndG	Gene name with skipped exon	TransID with skipped exon	LOF
ENSG00000279789	ENST00000623731	exon_skip_382458	chr3:38131595-38131638	-11.52	-0.5760	ACAA1	ENST00000333167	Frame-shift

lncRNA targets by miRNA.

LncRNA Ensembl ID

miRNA ID

LncRNA ENST ID

Binding site in lncRNA

Score

Energy

Align Len

Public source

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Variants for CTD-2574D22.3

RNA A-to-I editing events in lncRNA.

LncRNAediting ID

LncRNA Ensembl ID

Chromosome

Editing Position

Strand

Gene Type

Gene Name

Transcript ID

Transcript Type

Transcript Name

Edited-associated DElncRNAs in cancer.

LncRNA Ensembl ID

LncRNA Index

Cancer Type

Chr_Postion_Strand

AVE1

AVE2

log2FC

W-value

P-value

Adjc.p-value

Change

Correlation between RNA A-to-I editing events's frequecy and lncRNA expression.

LncRNA Ensembl ID

LncRNA Index

Correlation

P-value

Adjc.p-value

Cis-expression quantitative trait loci(cis-eQTL) of lncRNA.

LncRNA Ensembl ID

LncRNA Name

SNP info

Number of Positive corelated Cancer

Positive corelated Cancer

Number of Negative corelated Cancer

Negative corelated Cancer

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lncRNAs regulate the target genes through functioning as enhancers

lncRNA regulates differentially expressed genes by function as enhancer.

LncRNA Ensembl ID	PC Gene ID	PC Gene Name	Positive correlated cancers	Cancer with PC gene up-regulation	Cancer with PC gene down-regulation
ENSG00000279789	ENSG00000007384	RHBDF1	BRCA,CHOL,ESCA,GBM,READ	CHOL,READ
ENSG00000279789	ENSG00000007545	CRAMP1	BRCA,CHOL,COAD,GBM,LGG,OV,READ,STAD	CHOL
ENSG00000279789	ENSG00000014914	MTMR11	BRCA,CHOL,COAD,ESCA,READ	CHOL
ENSG00000279789	ENSG00000047578	KATNIP	BRCA,CHOL,COAD,ESCA,GBM,LGG,OV,READ	CHOL
ENSG00000279789	ENSG00000068885	IFT80	BRCA,CHOL,COAD,GBM,LGG	CHOL
ENSG00000279789	ENSG00000100068	LRP5L	BRCA,CHOL,COAD,ESCA,READ,STAD	READ
ENSG00000279789	ENSG00000105443	CYTH2	BRCA,CHOL,COAD,ESCA,GBM,LGG,READ	CHOL
ENSG00000279789	ENSG00000115687	PASK	BRCA,CHOL,COAD,ESCA,OV,READ,STAD	CHOL,READ
ENSG00000279789	ENSG00000116580	GON4L	BRCA,CHOL,COAD,ESCA,GBM,LGG,READ,STAD	CHOL
ENSG00000279789	ENSG00000125633	CCDC93	BRCA,CHOL,COAD,GBM,LGG,READ	CHOL
ENSG00000279789	ENSG00000132680	KHDC4	BRCA,CHOL,COAD,ESCA,GBM,LGG,OV,READ,STAD	CHOL,READ
ENSG00000279789	ENSG00000137343	ATAT1	BRCA,CHOL,COAD,ESCA,OV,READ	CHOL,READ
ENSG00000279789	ENSG00000138002	IFT172	BRCA,CHOL,ESCA,GBM,LGG	CHOL
ENSG00000279789	ENSG00000138834	MAPK8IP3	BRCA,CHOL,COAD,ESCA,OV,READ,STAD	CHOL,READ
ENSG00000279789	ENSG00000139625	MAP3K12	BRCA,CHOL,GBM,LGG,OV	CHOL
ENSG00000279789	ENSG00000143258	USP21	BRCA,CHOL,GBM,LGG,READ	CHOL
ENSG00000279789	ENSG00000144134	RABL2A	BRCA,CHOL,GBM,LGG,OV	CHOL
ENSG00000279789	ENSG00000146830	GIGYF1	BRCA,CHOL,COAD,GBM,LGG,OV,READ	READ
ENSG00000279789	ENSG00000147162	OGT	BRCA,CHOL,COAD,ESCA,GBM,LGG,OV,READ,STAD	READ
ENSG00000279789	ENSG00000160796	NBEAL2	BRCA,CHOL,COAD,GBM,LGG,OV,READ	CHOL,READ
ENSG00000279789	ENSG00000162836	ACP6	BRCA,CHOL,COAD,ESCA,LGG,READ	READ
ENSG00000279789	ENSG00000163257	DCAF16	BRCA,CHOL,COAD,GBM,READ	CHOL
ENSG00000279789	ENSG00000163482	STK36	BRCA,CHOL,COAD,ESCA,GBM,LGG,OV,READ	CHOL,READ
ENSG00000279789	ENSG00000164050	PLXNB1	BRCA,CHOL,COAD,GBM,OV,READ	READ
ENSG00000279789	ENSG00000167595	PROSER3	BRCA,CHOL,COAD,GBM,LGG,READ	CHOL
ENSG00000279789	ENSG00000167615	LENG8	BRCA,CHOL,COAD,ESCA,GBM,LGG,OV,READ,STAD	CHOL,READ
ENSG00000279789	ENSG00000168096	ANKS3	BRCA,CHOL,COAD,ESCA,GBM,LGG,OV,READ,STAD	CHOL,READ
ENSG00000279789	ENSG00000173681	BCLAF3	BRCA,CHOL,COAD,ESCA,GBM,LGG,OV,STAD	CHOL
ENSG00000279789	ENSG00000174943	KCTD13	BRCA,CHOL,COAD,ESCA,GBM,LGG,OV,READ,STAD	CHOL,READ
ENSG00000279789	ENSG00000175265	GOLGA8A	BRCA,COAD,ESCA,GBM,LGG,OV,READ,STAD	STAD
ENSG00000279789	ENSG00000175455	CCDC14	BRCA,CHOL,COAD,GBM,LGG,OV,READ,STAD	STAD
ENSG00000279789	ENSG00000176809	LRRC37A3	BRCA,CHOL,GBM,LGG,OV	CHOL
ENSG00000279789	ENSG00000183397	C19orf71	BRCA,CHOL,COAD,GBM,LGG,OV	CHOL
ENSG00000279789	ENSG00000184445	KNTC1	BRCA,CHOL,COAD,GBM,LGG,READ	CHOL,READ
ENSG00000279789	ENSG00000184465	WDR27	BRCA,CHOL,COAD,ESCA,GBM,LGG,OV,READ,STAD	READ
ENSG00000279789	ENSG00000185917	SETD4	BRCA,CHOL,COAD,GBM,LGG,READ	CHOL
ENSG00000279789	ENSG00000186166	CENATAC	BRCA,CHOL,COAD,ESCA,GBM,LAML,LGG,OV,READ,STAD	READ
ENSG00000279789	ENSG00000187535	IFT140	BRCA,CHOL,GBM,LGG,READ	CHOL
ENSG00000279789	ENSG00000196187	TMEM63A	BRCA,CHOL,COAD,ESCA,OV,READ	READ
ENSG00000279789	ENSG00000197119	SLC25A29	BRCA,CHOL,COAD,ESCA,GBM,LGG,OV,READ	CHOL,READ
ENSG00000279789	ENSG00000197774	EME2	BRCA,CHOL,COAD,ESCA,GBM,LGG,OV,READ,STAD	CHOL,READ
ENSG00000279789	ENSG00000198707	CEP290	BRCA,CHOL,COAD,LAML,LGG,STAD	CHOL
ENSG00000279789	ENSG00000198920	KIAA0753	BRCA,CHOL,COAD,GBM,LGG	CHOL
ENSG00000279789	ENSG00000204130	RUFY2	BRCA,CHOL,COAD,LAML,OV	CHOL
ENSG00000279789	ENSG00000204149	AGAP6	BRCA,CHOL,COAD,ESCA,GBM,LGG,OV,READ,STAD	READ
ENSG00000279789	ENSG00000213903	LTB4R	BRCA,COAD,GBM,LGG,OV,READ	READ
ENSG00000279789	ENSG00000214021	TTLL3	BRCA,CHOL,COAD,ESCA,GBM,LGG,OV,READ,STAD	CHOL,READ
ENSG00000279789	ENSG00000215252	GOLGA8B	BRCA,CHOL,COAD,ESCA,GBM,LGG,OV,READ,STAD	READ
ENSG00000279789	ENSG00000221978	CCNL2	BRCA,COAD,ESCA,GBM,LGG,OV,READ,STAD	READ
ENSG00000279789	ENSG00000250067	YJEFN3	BRCA,CHOL,ESCA,GBM,LGG,OV	CHOL
ENSG00000279789	ENSG00000256525	POLG2	BRCA,CHOL,COAD,ESCA,GBM,LAML,LGG,OV,READ,STAD	READ
ENSG00000279789	ENSG00000006025	OSBPL7	CHOL,COAD,ESCA,GBM,LGG,READ	CHOL
ENSG00000279789	ENSG00000046651	OFD1	CHOL,COAD,ESCA,GBM,LGG,STAD	CHOL
ENSG00000279789	ENSG00000095066	HOOK2	CHOL,COAD,GBM,LGG,READ	CHOL
ENSG00000279789	ENSG00000100288	CHKB	CHOL,COAD,GBM,LGG,READ,STAD	READ
ENSG00000279789	ENSG00000103037	SETD6	CHOL,COAD,GBM,LAML,LGG,READ	READ
ENSG00000279789	ENSG00000103168	TAF1C	CHOL,COAD,GBM,LGG,OV,READ	READ
ENSG00000279789	ENSG00000108773	KAT2A	CHOL,GBM,LGG,OV,READ	READ
ENSG00000279789	ENSG00000111785	RIC8B	CHOL,COAD,GBM,LAML,LGG,READ	CHOL
ENSG00000279789	ENSG00000124181	PLCG1	CHOL,COAD,GBM,LGG,READ	READ
ENSG00000279789	ENSG00000126001	CEP250	CHOL,COAD,GBM,LAML,LGG	CHOL
ENSG00000279789	ENSG00000135722	FBXL8	CHOL,COAD,OV,READ,STAD	READ
ENSG00000279789	ENSG00000141013	GAS8	CHOL,COAD,GBM,LGG,READ	CHOL
ENSG00000279789	ENSG00000142330	CAPN10	CHOL,COAD,ESCA,GBM,LGG	CHOL
ENSG00000279789	ENSG00000143643	TTC13	CHOL,COAD,ESCA,READ,STAD	CHOL
ENSG00000279789	ENSG00000143748	NVL	CHOL,COAD,LAML,LGG,READ	CHOL
ENSG00000279789	ENSG00000144445	KANSL1L	CHOL,COAD,ESCA,GBM,READ	CHOL
ENSG00000279789	ENSG00000152457	DCLRE1C	CHOL,COAD,ESCA,LAML,STAD	CHOL
ENSG00000279789	ENSG00000160298	C21orf58	CHOL,COAD,GBM,LGG,OV,READ	CHOL
ENSG00000279789	ENSG00000160439	RDH13	CHOL,COAD,ESCA,READ,STAD	CHOL
ENSG00000279789	ENSG00000162769	FLVCR1	CHOL,ESCA,GBM,LGG,READ	CHOL,READ
ENSG00000279789	ENSG00000183856	IQGAP3	CHOL,COAD,ESCA,GBM,READ	CHOL,READ
ENSG00000279789	ENSG00000196123	KIAA0895L	CHOL,COAD,GBM,LGG,OV,READ	READ
ENSG00000279789	ENSG00000215440	NPEPL1	CHOL,COAD,GBM,LGG,OV,READ	CHOL,READ
ENSG00000279789	ENSG00000278259	MYO19	CHOL,COAD,GBM,LGG,READ	CHOL
ENSG00000279789	ENSG00000143630	HCN3	COAD,ESCA,GBM,LGG,OV,READ	READ

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lncRNAs regulate the target genes through recruiting transcript factors

LncRNA-TF complex positively regulates the gene expression by target promoter region (#cancer types with positive correlation >= 5).

lncRNA ID

TF ID

TF Name

PCgene ID

PCgene Name

Number of Cancer

Canaer Types

LncRNA-TF complex negatively regulates the gene expression by target promoter region (#cancer types with negative correlation >= 5).

lncRNA ID

TF ID

TF Name

PCgene ID

PCgene Name

Number of Cancer

Canaer Types

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lncRNAs regulate the alternative splicing event through interacting with splicing factor

LncRNA-RBP complex positively regulates the exon skippping events by target skipped eoxon region.

LncRNA Ensembl ID

RBP ID

RBP Gene Name

Exon Skipping ID

Skipped Exon

EX Gene Name

EX Affected TransID

ORF_anno

Cancer Type

LncRNA-RBP complex negatively regulates the exon skippping events by target skipped eoxon region.

LncRNA Ensembl ID

RBP ID

RBP Gene Name

Exon Skipping ID

Skipped Exon

EX Gene Name

EX Affected TransID

ORF_anno

Cancer Type

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lncRNAs regulate mRNA through targeting the 3'-UTR region

lncRNA regulates differential expressed mRNA by directly targeting 3' UTR region.

LncRNA Ensembl ID

LncRNA ENST ID

PC Gene Name

PC Gene ID

PC ENST ID

nDG

Cancer with PC gene up-regulation

Cancer with PC gene Down-regulation

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lncRNAs regulate mRNA by competing with miRNA

lncRNA regulates mRNA by competing the miRNA binding site with mRNA.

LncRNA Ensembl ID

lncRNA-miRNA-mRNA

Cancer Types

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lncRNA coding potential

ORFfinder result for the gencode.v22.lncRNA.transcript.fa.

lncRNA Ensembl ID	lncRNA ENST ID	length(AA)	start at transcript	end at transcript
ENSG00000279789.1	ENST00000623731.1	134	333	737

	lncRNA summary
	lncRNA structure and expression level
	lncRNA-Protein interaction
	lncRNA-DNA interaction
	lncRNA-RNA interaction
	Variants in lncRNA
	lncRNAs regulate the target genes through functioning as enhancers
	lncRNAs regulate the target genes through recruiting transcript factors
	lncRNAs regulate the alternative splicing events through interacting with splicing factor
	lncRNAs regulate mRNA through targeting the 3'-UTR region
	lncRNAs regulate mRNA by competing with miRNA
	lncRNA coding potential